DreALTA0022349-2/3 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000015971 | rapgef1b
Description
Rap guanine nucleotide exchange factor (GEF) 1b [Source:ZFIN;Acc:ZDB-GENE-040426-1001]
Coordinates
chr21:4016327-4018424:+
Coord C1 exon
chr21:4016327-4016447
Coord A exon
chr21:4018241-4018243
Coord C2 exon
chr21:4018244-4018424
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TGTTGTCTGTGCTCCAGCAGCAG
3' ss Score
5
Exon sequences
Seq C1 exon
TCCACCGGCTCTGCCTCCGAAGAAGCGTCAGTCGGCCCCGTCACCCACCCGTGTGGCAGTGGTGGCCCCGATGAGCCGGGGTCCGTGTAGCCTCAGCCTGCCTCCTGGAGCCCTCAGACAG
Seq A exon
CAG
Seq C2 exon
GACTTTGATGTGGATCTCCTCCAGAGGCGTTTCTCAGGCGGCAGTCAGTCATATGATGGAGAATCTCCTCGTCTTTCTCCCTGTAACAGCATGGGAAAACTCAGCAAATCTGATGAGCAGCTTTCGTCTCTGGAGCGGGACAGTGGACAGTGCTCTCGCAACACCAGCTGTGAAACGCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000015971-12-14,12-13,12-12-2/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.952
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCTGGAGCCCTCAGACAG
R:
ACAGGGAGAAAGACGAGGAGA
Band lengths:
104-107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]